Detailed information    

insolico Bioinformatically predicted

Overview

Name   radA   Type   Machinery gene
Locus tag   DQL06_RS01185 Genome accession   NZ_LS483321
Coordinates   209714..211075 (+) Length   453 a.a.
NCBI ID   WP_002986109.1    Uniprot ID   A0A4Q1R665
Organism   Streptococcus pyogenes strain NCTC8314     
Function   homologous recombination (predicted from homology)   
Homologous recombination

Related MGE

Note: This gene co-localizes with putative mobile genetic elements (MGEs) in the genome predicted by VRprofile2, as detailed below.

Gene-MGE association summary

MGE type MGE coordinates Gene coordinates Relative position Distance (bp)
Prophage 177216..209633 209714..211075 flank 81


Gene organization within MGE regions


Location: 177216..211075
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  DQL06_RS01030 (NCTC8314_00204) polA 177216..179858 (+) 2643 WP_111689455.1 DNA polymerase I -
  DQL06_RS01035 (NCTC8314_00205) - 180045..180500 (+) 456 WP_002986334.1 CoA-binding protein -
  DQL06_RS01040 (NCTC8314_00206) perR 180552..181019 (+) 468 WP_002986328.1 peroxide-responsive transcriptional repressor PerR -
  DQL06_RS01045 - 181238..181474 (+) 237 WP_227868539.1 hypothetical protein -
  DQL06_RS01050 (NCTC8314_00208) - 181696..183030 (+) 1335 WP_002987923.1 phosphoadenosine phosphosulfate reductase -
  DQL06_RS01055 (NCTC8314_00209) - 183023..183553 (+) 531 WP_002987925.1 IbrB-like domain-containing protein -
  DQL06_RS09585 - 183600..183749 (-) 150 Protein_159 ISL3 family transposase -
  DQL06_RS01065 - 183876..185032 (-) 1157 Protein_160 IS3 family transposase -
  DQL06_RS01070 (NCTC8314_00214) - 185110..186420 (-) 1311 WP_002984130.1 SLC13 family permease -
  DQL06_RS01075 (NCTC8314_00215) nadC 186644..187516 (+) 873 WP_063812441.1 carboxylating nicotinate-nucleotide diphosphorylase -
  DQL06_RS01080 - 187816..189127 (-) 1312 Protein_163 IS3 family transposase -
  DQL06_RS01085 (NCTC8314_00219) - 189213..190076 (-) 864 WP_002987944.1 DUF975 family protein -
  DQL06_RS09855 - 190113..190298 (+) 186 WP_002986321.1 hypothetical protein -
  DQL06_RS01095 (NCTC8314_00220) tgt 190295..191437 (+) 1143 WP_011528208.1 tRNA guanosine(34) transglycosylase Tgt -
  DQL06_RS01100 (NCTC8314_00221) - 191654..191965 (+) 312 WP_030126467.1 CHY zinc finger protein -
  DQL06_RS01105 (NCTC8314_00222) - 191969..192508 (+) 540 WP_002986314.1 biotin transporter BioY -
  DQL06_RS01110 (NCTC8314_00223) - 192648..193427 (+) 780 WP_023079330.1 MBL fold metallo-hydrolase -
  DQL06_RS01115 (NCTC8314_00224) tadA 193427..193942 (+) 516 WP_002992549.1 tRNA adenosine(34) deaminase TadA -
  DQL06_RS01120 (NCTC8314_00225) - 194556..195788 (-) 1233 WP_023079302.1 transglutaminase domain-containing protein -
  DQL06_RS01130 (NCTC8314_00227) speG 196188..196892 (+) 705 WP_023079329.1 streptococcal pyrogenic exotoxin SpeG -
  DQL06_RS01135 (NCTC8314_00228) - 197347..198696 (+) 1350 WP_014635263.1 glucose-6-phosphate isomerase -
  DQL06_RS01140 - 199045..200553 (-) 1509 WP_002986134.1 helix-turn-helix domain-containing protein -
  DQL06_RS01145 (NCTC8314_00231) - 201241..201912 (+) 672 WP_011017305.1 rhomboid family intramembrane serine protease -
  DQL06_RS01150 (NCTC8314_00232) galU 202011..202910 (-) 900 WP_030126472.1 UTP--glucose-1-phosphate uridylyltransferase GalU -
  DQL06_RS01155 (NCTC8314_00233) - 202943..203959 (-) 1017 WP_111689456.1 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase -
  DQL06_RS01160 (NCTC8314_00234) - 204257..204706 (+) 450 WP_002986120.1 MarR family winged helix-turn-helix transcriptional regulator -
  DQL06_RS01165 (NCTC8314_00235) - 204699..206405 (+) 1707 WP_111689457.1 ABC transporter ATP-binding protein -
  DQL06_RS01170 (NCTC8314_00236) - 206408..208192 (+) 1785 WP_023079314.1 ABC transporter ATP-binding protein -
  DQL06_RS01175 (NCTC8314_00237) - 208310..209077 (+) 768 WP_002986113.1 epoxyqueuosine reductase QueH -
  DQL06_RS01180 (NCTC8314_00239) - 209187..209633 (+) 447 WP_002986111.1 dUTP diphosphatase -
  DQL06_RS01185 (NCTC8314_00240) radA 209714..211075 (+) 1362 WP_002986109.1 DNA repair protein RadA Machinery gene

Sequence

Protein


Download         Length: 453 a.a.        Molecular weight: 49386.68 Da        Isoelectric Point: 6.0962

>NTDB_id=1136345 DQL06_RS01185 WP_002986109.1 209714..211075(+) (radA) [Streptococcus pyogenes strain NCTC8314]
MAKKKATFICQECGYQSPKYLGRCPNCSAWSSFVEEVEVKEVKNARVSLAGEKSRPVKLKDVDNISYHRTQTDMSEFNRV
LGGGVVPGSLILIGGDPGIGKSTLLLQVSTQLANKGTVLYVSGEESAEQIKLRSERLGDIDNEFYLYAETNMQAIRTEIE
NIKPDFLIIDSIQTIMSPDITGVQGSVSQVREVTAELMQLAKTNNIATFIVGHVTKEGTLAGPRMLEHMVDTVLYFEGER
HHTFRILRAVKNRFGSTNEIGIFEMQSGGLVEVLNPSQVFLEERLDGATGSAVVVTMEGSRPILAEVQSLVTPTVFGNAR
RTTTGLDFNRVSLIMAVLEKRCGLLLQNQDAYLKSAGGVKLDEPAIDLAVAVAIASSYKEKPTSPQEAFLGEIGLTGEIR
RVTRIEQRINEAAKLGFTKVYAPKNALQGIDIPQGIEVVGVTTVGQVLKAVFS

Nucleotide


Download         Length: 1362 bp        

>NTDB_id=1136345 DQL06_RS01185 WP_002986109.1 209714..211075(+) (radA) [Streptococcus pyogenes strain NCTC8314]
ATGGCAAAGAAAAAAGCAACCTTTATCTGTCAGGAGTGTGGCTACCAGTCGCCAAAATATTTAGGGCGCTGTCCAAATTG
CTCGGCCTGGTCTTCTTTTGTGGAAGAAGTAGAGGTCAAAGAAGTCAAAAATGCCCGTGTTAGTCTAGCTGGAGAAAAGT
CCAGGCCGGTTAAACTAAAAGATGTGGATAATATTAGTTATCACAGAACACAGACTGACATGTCTGAATTTAATAGAGTT
CTTGGAGGGGGTGTGGTTCCTGGAAGCTTGATTTTAATTGGTGGTGATCCAGGTATTGGAAAATCCACCTTACTCTTGCA
GGTATCCACGCAGCTCGCTAATAAGGGAACGGTTCTTTATGTGTCTGGGGAAGAATCAGCAGAGCAGATTAAACTGCGGA
GTGAGCGTCTGGGTGATATTGACAATGAATTTTACCTCTATGCCGAAACCAATATGCAAGCTATTCGCACAGAAATTGAA
AATATTAAACCAGATTTTTTAATTATTGACTCCATTCAGACCATCATGAGCCCTGATATTACAGGTGTTCAAGGATCAGT
CAGTCAGGTGAGAGAAGTCACTGCAGAATTGATGCAGCTTGCAAAGACGAACAACATTGCAACCTTTATTGTGGGTCATG
TCACCAAGGAAGGAACCTTGGCTGGGCCTCGTATGTTAGAACACATGGTGGATACCGTTCTCTACTTTGAAGGGGAAAGG
CATCACACCTTTCGCATTCTTCGGGCTGTGAAAAACCGCTTTGGCTCCACTAACGAGATTGGCATCTTTGAAATGCAGTC
TGGCGGCTTGGTAGAGGTCTTAAATCCTAGTCAAGTCTTTTTAGAGGAACGCTTAGATGGGGCAACAGGATCGGCTGTCG
TTGTAACGATGGAAGGAAGTCGTCCTATCTTAGCAGAGGTGCAATCTTTAGTGACACCAACCGTTTTTGGCAATGCCAGA
CGAACCACTACGGGACTTGATTTCAATCGCGTAAGCCTAATAATGGCAGTTTTAGAAAAGCGTTGTGGTTTACTCTTACA
AAATCAAGATGCCTACCTCAAGTCGGCTGGTGGTGTCAAACTAGACGAACCTGCCATTGATTTGGCAGTCGCTGTGGCTA
TCGCATCCAGTTATAAGGAAAAACCAACCAGCCCTCAAGAAGCTTTCTTAGGCGAGATCGGGTTAACAGGTGAGATTCGG
CGAGTGACCCGTATTGAGCAACGGATTAATGAAGCAGCAAAGCTTGGCTTTACCAAGGTCTATGCTCCTAAAAATGCCTT
GCAAGGCATTGATATCCCTCAAGGTATTGAGGTTGTTGGAGTGACTACGGTTGGTCAGGTTTTAAAGGCAGTTTTTAGCT
AG

Domains

Predicted by InterproScan.

Rubredoxin metal binding domain (Zn_ribbon_LapB)

(8-35)

Subunit ChlI of Mg-chelatase (ChlI)

(360-425)

AAA domain (AAA_25)

(56-218)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure
  AlphaFold DB A0A4Q1R665

Transmembrane helices

Transmembrane helices of protein were predicted by TMHMM 2.0 and visualized by seqviz and ECharts.


Visualization of predicted probability:


Similar proteins

Only experimentally validated proteins are listed.

Protein Organism Identities (%) Coverage (%) Ha-value
  radA Streptococcus mitis NCTC 12261

85.872

100

0.859
  radA Streptococcus pneumoniae D39

85.651

100

0.857
  radA Streptococcus pneumoniae R6

85.651

100

0.857
  radA Streptococcus pneumoniae Rx1

85.651

100

0.857
  radA Streptococcus mitis SK321

85.651

100

0.857
  radA Streptococcus pneumoniae TIGR4

85.651

100

0.857
  radA Bacillus subtilis subsp. subtilis str. 168

61.369

100

0.614

Multiple sequence alignment